The Football Association confirmed on Tuesday that the defender would face action following a clash with Fulham counterpart Philippe Senderos.
The incident was not seen by the match officials at Craven Cottage - but was caught on video.
Huth has until 6pm on Wednesday to respond to the charge. Dimitar Berbatov's goal was enough to settle a scrappy contest.
Stoke had been lucky to not be reduced to 10 men midway through the first half after Steven Nzonzi, who had taken a knock on the nose in an earlier collision with Berbatov, was booked for shoving Bryan Ruiz in the face.
Can we finally put an end to the debate that Robert Huth isn't that kind of player? It takes an ogre like him to make Ryan Shawcross look like a 'fair' player.- nathaus